Array 1 1038038-1039103 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP050760.1 Salmonella enterica subsp. enterica serovar Indiana strain SI170 chromosome, complete genome Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 1038038 29 100.0 32 ............................. TGTAACCACTGCGATATGGGCGATGACACAAA 1038099 29 100.0 32 ............................. CGGGAAGCGCAGCAGAACGCCCGGTCGCAGCG 1038160 29 100.0 32 ............................. ATCACCGGCACGCGCGATAACGGGTCTGATTA 1038221 29 100.0 32 ............................. CCGAAAATTACCGGGCAGTCACCGTGGGGGCA 1038282 29 100.0 32 ............................. ACGATCCAGATATTTGGCTGGATGCAATCGGT 1038343 29 100.0 32 ............................. CCCCATCGGTAACCTCTCACTATCGGTGTGTC 1038404 29 100.0 32 ............................. GCTTTTATGTCTGGTGGATATAACGCACTGAA 1038465 29 100.0 33 ............................. CAAAAACAGGTAAATTTGTTCGCTTCGTCAAGC 1038527 29 100.0 32 ............................. CGTATCCCGAAATCACGTTCAAGAAAAATCCG 1038588 29 100.0 32 ............................. CCGTTGATCAGAACGGCAACGAACGCACGTAC 1038649 29 100.0 32 ............................. TCAGCGTAGGTTGTTGACGTCCCCACCAGCCC 1038710 29 100.0 32 ............................. CCATTTTTGATCATCTCCTCCAGCCTGCTGAG 1038771 29 96.6 32 .............T............... CACTGGAGATATAGCTGCTGTCGTCATCGGGT 1038832 29 93.1 32 .............T..............A GTCAAATAAATATGAGTGAAGAAGCCAAAGCC 1038893 29 100.0 32 ............................. CCATAAGAGCATCCCCGCCATCCGGAGGGGAA 1038954 29 100.0 32 ............................. TGGGACATTCTCGCTAGTCACGGTCATGTCAT 1039015 29 100.0 32 ............................. TGCGCCAACGACTGGAATTTTTGCGTGTAGCC 1039076 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================= ================== 18 29 98.5 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCGCGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATTGCCTGATGCTCTATCAATTTTACGGACGGCCTGCCGATGCCGTCTGTGACTTATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCGGATAAATTTTTCCATAGCGATGCATGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGTAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCTATTATGTTGGTGGAATGTGGTGCTGATAAAAAATAGTTTATAAACAATGATATACGTTTAGT # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCTGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGGCCAGGATTAAGCTTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGCGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGACCCCCTGCCGATTGG # Questionable array : NO Score: 6.19 # Score Detail : 1:0, 2:3, 3:0, 4:0.93, 5:0, 6:0.25, 7:0.01, 8:1, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : GTGTTCCCCGCGCCAGCGGGGATAAACCG # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: F [5,4] Score: 0.37/0.37 # Reference repeat match prediction: F [matched GTGTTCCCCGCGCCAGCGGGGATAAACCG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: F [-13.50,-12.00] Score: 0.37/0.37 # Array degeneracy analysis prediction: F [0-8] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [71.7-63.3]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.65,0 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 2 1055645-1056467 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP050760.1 Salmonella enterica subsp. enterica serovar Indiana strain SI170 chromosome, complete genome Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 1055645 29 100.0 32 ............................. AGCACACATTGTGTGACGGTCGCCGTCTGGTT 1055706 29 100.0 32 ............................. CCGGTTGTCCTTGTAATGGGGGGGGGCATTTG 1055767 29 100.0 32 ............................. GGCGACGGGTTCGTCCGACCGCATCCGGGCCA 1055828 29 100.0 32 ............................. CTTGGAACCATAAAAGATGGGCAAATAGTGCA 1055889 29 100.0 32 ............................. TTCGTTTGATCTCCACTCACAACGGTATTGAA 1055950 29 100.0 32 ............................. TTCGGAGTCCGGATCATCATTCAGGATAACGA 1056011 29 100.0 32 ............................. AAATCGCGCGGCGATCGACTCAAGGCGGCGAC 1056072 29 100.0 32 ............................. AAAATCGTGAGTGACTATCGTTCTGTTATTGC 1056133 29 100.0 32 ............................. TCTCTGTGATTACCCCGGAGCATGGCGGTGCG 1056194 29 100.0 32 ............................. TGGCCGGGGAAACAAGGAAAGTCCTGGTTTTT 1056255 29 100.0 32 ............................. TTTGAAATCGCTATTCTTATTGCTGTAGCAGT 1056316 29 100.0 32 ............................. CGTTAACTAAAACGAACAAAACAGGGAAATCA 1056377 29 100.0 32 ............................. AAGACAACTCCTGTCTTTCCATCACTCGAAGC 1056438 29 100.0 0 ............................. | A [1056465] ========== ====== ====== ====== ============================= ================================ ================== 14 29 100.0 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CTTATTGAAGATGTTCTCGCGGCAGGGGAAATTCAACCGCCGTTACCTCCTGAAGATTCACAACCCATAGCGATCCCTCTTCCTGTTGCGTTGGGAGATTCCGGTCATCGGAGTACCTAACGATGAGTATGCTGGTTGTCGTTACCGAAAATGTTCCTCCTCGTCTGCGGGGGAGGCTGGCCGTCTGGTTACTGGAAATTCGAGCTGGTGTGTATGTTGGTGATGTTTCCACAAAGATCCGCGAGATGATATGGCAACAGGTTTCCGTTCTGGCAGATGAGGGAAATGTTGTTATGGCGTGGGCGACAAATACAGAATCAAGTTTTGAGTTTCAGACTTTTGGTGTAAATCGACGTATTCCGGTAGATCTTGATGGACTGCGATTGGTGTCGTTTCTACCTGTTGAAAATCAATAAGTTATAGATCTTTAAAAATTAGGAAAAGTTGGTGGGTTTTTTGTGCGCTAAAAAAGTATTTAAATTCAATTGGGTAGATTTAGA # Right flank : GTTTCAACAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCTGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # Questionable array : NO Score: 6.26 # Score Detail : 1:0, 2:3, 3:0, 4:1.00, 5:0, 6:0.25, 7:0.01, 8:1, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : GTGTTCCCCGCGCCAGCGGGGATAAACCG # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: F [5,4] Score: 0.37/0.37 # Reference repeat match prediction: F [matched GTGTTCCCCGCGCCAGCGGGGATAAACCG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: F [-13.50,-12.00] Score: 0.37/0.37 # Array degeneracy analysis prediction: F [0-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [70.0-50.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.92,0 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], //